EUTREP15
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001217 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Eutheria |
| Length | 866 |
| Kimura value | 31.38 |
| Tau index | 0.0000 |
| Description | Conserved repetitive element present in placental mammals. |
| Comment | TG..CA termini and presence of AATAAA at appropriate place (pos 721-726) suggests LTR. |
| Sequence |
TGTCCTGGGGCAATACTGGAAAATCCCTTTTAAAGGGCCAGTTTGCCCCTGGCAAGAAACTTTGTAATGCTTCCCCAGGTGATTAGTTTCGGGAGGTCATTTTAGTAGGCCTGATAATCGTAAACAAATTATTTTGAAGTGATGATTTAAATTGTGTATTGGCAGGAATTGAATATTCAAGTGTAATGAGTTTAATTGATTATAAGAGAGTGTTTCTTTTGAGATGATGCAATAACTGCCGGTGTTGAGTTTGCTGTTTGAAATGCGCGCCGGCGGGAANGATTTAAATGTTTAAAGTATTTGAATTGTATTGGTTGTAAGAGAGTGCATTTAAAATATGTAAAAGTGATTGGCTCCCTCTGTAGCCCCGGGTGCAGCATCTGTCCCTAAGTGATAAGGCGTCGGTTAACGCCCTAAAGCCCCCATAAAAGNGGCCGCTTTGCCCCGATCAAAACGGGGCAGTCACTTCGACAGAGCCTTGAGTTCCGGTCACGGTGGTCTGTCTCTGAAGAACTCCAGCTGGTGGGGCCGCTCCTCTCCCAAGCCGGAAGCAGACGACCCAGCGTCTGGAGAGCCCAAGACTGCCAGGACNCGCGTTCCCCATCCTTCTCCACCTGCTGCGCCGACATCGGGAGGGTAAAAGTGTGTTGTGTTGTGTGTGGTGCTAAAACCCTCCACACCTCCCTTGAGGGTCTGGGACTTAGGGGTGGTGGGTGCCGGCAATAAAGAGTGTATGTGCTTGAATGTCCATTTTCCTNTGTGAATCATTACCTTACGGTGCCACGGCATGCAGGAGCAGAACCGCAGGGTTTAATACAGAGGAGAATCGCGCCTCAATCCTTCCCTTTGGAAGGAACCCTAAAACA
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TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| EUTREP15 | E2F7 | 157 | 170 | - | 0.36 | AATTCCTGCCAATA |
| EUTREP15 | TCP14 | 703 | 720 | + | -1.33 | AGGGGTGGTGGGTGCCGG |
| EUTREP15 | AT4G12670 | 683 | 711 | - | -15.20 | ACCACCCCTAAGTCCCAGACCCTCAAGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
